BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 006108
(661 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MR6|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex With A Cpd
2bp Upstream Of The Active Site (Tt4)
pdb|3TQ1|A Chain A, Human Dna Polymerase Eta In Binary Complex With Dna
pdb|4EEY|A Chain A, Crystal Structure Of Human Dna Polymerase Eta In Ternary
Complex With A Cisplatin Dna Adduct
Length = 435
Score = 230 bits (586), Expect = 2e-60, Method: Compositional matrix adjust.
Identities = 138/350 (39%), Positives = 193/350 (55%), Gaps = 15/350 (4%)
Query: 2 VVSSMRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERASIDEVY 61
V SM D+AK++CP + L QV +RGKA+L+ YR A EV+ I++R ERASIDE Y
Sbjct: 62 VTRSMWADDAKKLCPDLLLAQVRESRGKANLTKYREASVEVMEIMSRFAVIERASIDEAY 121
Query: 62 LDLTDAAEAMLA--ETPPESLDEVDEEALKSHILGLESKDGNDSKATVK-----EWLCRC 114
+DLT A + L + P S D + ++ G + + K ++ +WL
Sbjct: 122 VDLTSAVQERLQKLQGQPISADLLPSTYIEGLPQGPTTAEETVQKEGMRKQGLFQWLDSL 181
Query: 115 DADHR---DKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTV 171
D+ D L G +IV E+R + +ET F CSAGI+HNK+LAKLA G+NKP +QT V
Sbjct: 182 QIDNLTSPDLQLTVGAVIVEEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPNRQTLV 241
Query: 172 PFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWL 231
SV L +PI+K++ LGGKLG S+ LG+ +G+L +F+E +LQ +G G+WL
Sbjct: 242 SHGSVPQLFSQMPIRKIRSLGGKLGASVIEILGIEYMGELTQFTESQLQSHFGEKNGSWL 301
Query: 232 WNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQ 291
+ + RGI + V+ R LPK+ G K+FPG AL T VQ WL QL +EL ERL D
Sbjct: 302 YAMCRGIEHDPVKPRQLPKTIGCSKNFPGKTALATREQVQWWLLQLAQELEERLTKDRND 361
Query: 292 NKRIAHTLTLHXXXXXXXXXXXXXXXXXXXCPL-RYGTAKIQEDTFNLFQ 340
N R+A L + C L RY K+ D F + +
Sbjct: 362 NDRVATQLVV----SIRVQGDKRLSSLRRCCALTRYDAHKMSHDAFTVIK 407
>pdb|3MR2|A Chain A, Human Dna Polymerase Eta In Complex With Normal Dna And
Incoming Nucleotide (Nrm)
pdb|3MR3|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex With The
3't Of A Cpd In The Active Site (Tt1)
pdb|3MR5|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex With A Cpd
1bp Upstream Of The Active Site (Tt3)
pdb|3SI8|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex With The
5't Of A Cpd In The Active Site (Tt2)
pdb|4DL2|A Chain A, Human Dna Polymerase Eta Inserting Dcmpnpp Opposite Cg
Template (Gg0a)
pdb|4DL3|A Chain A, Human Dna Polymerase Eta Inserting Dcmpnpp Opposite Gg
Template (Gg0b).
pdb|4DL4|A Chain A, Human Dna Polymerase Eta Inserting Dcmpnpp Opposite The
3'g Of Cisplatin Crosslinked Gs (Pt-Gg1).
pdb|4DL5|A Chain A, Human Dna Polymerase Eta Inserting Dcmpnpp Opposite The
5'g Of Cisplatin Crosslinked Gs (Pt-Gg2).
pdb|4DL6|A Chain A, Human Dna Polymerase Eta Extending Primer Immediately
After Cisplatin Crosslink (Pt-Gg3).
pdb|4DL7|A Chain A, Human Dna Polymerase Eta Fails To Extend Primer 2
Nucleotide After Cisplatin Crosslink (Pt-Gg4).
pdb|4ECQ|A Chain A, Human Dna Polymerase Eta- Dna Ternary Complex: At Crystal
At Ph6.8(K+ Mes) With 1 Ca2+ Ion
pdb|4ECR|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 40 Sec
pdb|4ECS|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 80 Sec
pdb|4ECT|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 140 Sec
pdb|4ECU|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 200 Sec
pdb|4ECV|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 230 Sec
pdb|4ECW|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 250 Sec
pdb|4ECX|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 300 Sec
pdb|4ECY|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: At Crystal
At Ph 6.0 (Na+ Mes) With 1 Ca2+ Ion
pdb|4ECZ|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: At Crystal
At Ph 6.5 (Na+ Mes) With 1 Ca2+ Ion
pdb|4ED0|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: At Crystal
At Ph 6.8 (Na+ Mes) With 1 Ca2+ Ion
pdb|4ED1|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: At Crystal
At Ph 7.0 (Na+ Mes) With 1 Ca2+ Ion
pdb|4ED2|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: At Crystal
At Ph 7.2 (Na+ Hepes) With 1 Ca2+ Ion
pdb|4ED3|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: At Crystal
At Ph 7.5 (Na+ Hepes) With 1 Ca2+ Ion
pdb|4ED6|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 6.7 For 15 Hr, Sideway
Translocation
pdb|4ED7|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Tg Crystal
At Ph 7.0 (K+ Mes) With 1 Ca2+ Ion
pdb|4ED8|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The Tg Crystal At Ph 7.0, Normal Translocation
Length = 435
Score = 229 bits (585), Expect = 3e-60, Method: Compositional matrix adjust.
Identities = 138/350 (39%), Positives = 193/350 (55%), Gaps = 15/350 (4%)
Query: 2 VVSSMRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERASIDEVY 61
V SM D+AK++CP + L QV +RGKA+L+ YR A EV+ I++R ERASIDE Y
Sbjct: 62 VTRSMWADDAKKLCPDLLLAQVRESRGKANLTKYREASVEVMEIMSRFAVIERASIDEAY 121
Query: 62 LDLTDAAEAMLA--ETPPESLDEVDEEALKSHILGLESKDGNDSKATVK-----EWLCRC 114
+DLT A + L + P S D + ++ G + + K ++ +WL
Sbjct: 122 VDLTSAVQERLQKLQGQPISADLLPSTYIEGLPQGPTTAEETVQKEGMRKQGLFQWLDSL 181
Query: 115 DADHR---DKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTV 171
D+ D L G +IV E+R + +ET F CSAGI+HNK+LAKLA G+NKP +QT V
Sbjct: 182 QIDNLTSPDLQLTVGAVIVEEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPNRQTLV 241
Query: 172 PFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWL 231
SV L +PI+K++ LGGKLG S+ LG+ +G+L +F+E +LQ +G G+WL
Sbjct: 242 SHGSVPQLFSQMPIRKIRSLGGKLGASVIEILGIEYMGELTQFTESQLQSHFGEKNGSWL 301
Query: 232 WNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQ 291
+ + RGI + V+ R LPK+ G K+FPG AL T VQ WL QL +EL ERL D
Sbjct: 302 YAMCRGIEHDPVKPRQLPKTIGCSKNFPGKTALATREQVQWWLLQLAQELEERLTKDRND 361
Query: 292 NKRIAHTLTLHXXXXXXXXXXXXXXXXXXXCPL-RYGTAKIQEDTFNLFQ 340
N R+A L + C L RY K+ D F + +
Sbjct: 362 NDRVATQLVV----SIRVQGDKRLSSLRRCCALTRYDAHKMSHDAFTVIK 407
>pdb|2DPI|A Chain A, Ternary Complex Of Hpoli With Dna And Dctp
pdb|2DPJ|A Chain A, Structure Of Hpoli With Dna And Dttp
pdb|2FLN|A Chain A, Binary Complex Of Catalytic Core Of Human Dna Polymerase
Iota With Dna (Template A)
pdb|2FLP|A Chain A, Binary Complex Of The Catalytic Core Of Human Dna
Polymerase Iota With Dna (Template G)
pdb|2FLL|A Chain A, Ternary Complex Of Human Dna Polymerase Iota With Dna And
Dttp
pdb|3EPG|A Chain A, Structure Of Human Dna Polymerase Iota Complexed With
N2-Ethylguanine
pdb|3EPI|A Chain A, Structure Of Human Dna Polymerase Iota Complexed With
N2-Ethylguanine And Incoming Ttp
pdb|3G6V|A Chain A, Dna Synthesis Across An Abasic Lesion By Human Dna
Polymerase-Iota
pdb|3G6X|A Chain A, Ternary Complex Of Dna Polymerase Iota:dna:dgtp With An
Abasic Site At The Templating Position
pdb|3G6Y|A Chain A, Ternary Complex Of Dna Polymerase Iota:dna:dttp With An
Abasic Site At The Templating Position
pdb|3GV7|B Chain B, Human Dna Polymerase Iota In Complex With T Template Dna
And Incoming Dttp
pdb|3GV8|B Chain B, Human Dna Polymerase Iota In Complex With T Template Dna
And Incoming Dgtp
pdb|3NGD|A Chain A, Structural Basis For Proficient Incorporation Of Dttp
Opposite O6- Methylguanine By Human Dna Polymerase Iota
pdb|3OSN|A Chain A, Structural Basis For Proficient Incorporation Of Dttp
Opposite O6- Methylguanine By Human Dna Polymerase Iota
pdb|3Q8P|B Chain B, Human Dna Polymerase Iota Incorporating Dctp Opposite
8-Oxo-Guanine
pdb|3Q8Q|B Chain B, Human Dna Polymerase Iota Incorporating Datp Opposite
8-Oxo-Guanine
pdb|3Q8R|B Chain B, Human Dna Polymerase Iota Incorporating Dgtp Opposite
8-Oxo-Guanine
pdb|3Q8S|B Chain B, Human Dna Polymerase Iota Incorporating Dttp Opposite
8-Oxo-Guanine
pdb|4EBC|A Chain A, Conformationally Restrained
North-Methanocarba-2'-Deoxyadenosine Corrects The
Error-Prone Nature Of Human Dna Polymerase Iota
pdb|4EBD|A Chain A, Conformationally Restrained
North-Methanocarba-2'-Deoxyadenosine Corrects The
Error-Prone Nature Of Human Dna Polymerase Iota
pdb|4EBE|A Chain A, Conformationally Restrained
North-Methanocarba-2'-Deoxyadenosine Corrects The
Error-Prone Nature Of Human Dna Polymerase Iota
pdb|4FS1|A Chain A, Base Pairing Mechanism Of N2,3-Ethenoguanine With Dttp By
Human Polymerase Iota
pdb|4FS2|A Chain A, Base Pairing Mechanism Of N2,3-Ethenoguanine With Dctp By
Human Polymerase Iota
pdb|4EYH|B Chain B, Human Dna Polymerase Iota Incorporating Dctp Opposite N-
(deoxyguanosin-8-yl)-1-aminopyrene Lesion
pdb|4EYI|B Chain B, Human Dna Polymerase Iota Incorporating Datp Opposite N-
(deoxyguanosin-8-yl)-1-aminopyrene Lesion
Length = 420
Score = 83.2 bits (204), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 85/298 (28%), Positives = 131/298 (43%), Gaps = 34/298 (11%)
Query: 6 MRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDL 64
M +AKE CPQ+ LV DL+ YR +V +L ER DE ++DL
Sbjct: 79 MNVRDAKEKCPQLVLV------NGEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDL 132
Query: 65 TDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLA 124
T+ E L + DE+ + H+ +S + D H L+
Sbjct: 133 TEMVEKRLQQLQS---DELSAVTVSGHVYNNQSIN-------------LLDVLHIRLLV- 175
Query: 125 CGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSL- 183
G I E+R + + T AG+A NK+LAKL SG+ KP QQT + S + L+ SL
Sbjct: 176 -GSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLN 234
Query: 184 PIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEV 243
IK++ +G K L+ LG+ +V DL FS L++ G + + ++ G V
Sbjct: 235 HIKEIPGIGYKTAKCLE-ALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPV 293
Query: 244 QARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTL 301
P+S SF + + ++ + +L L R+C Q+ R HT+ L
Sbjct: 294 ILSGPPQSFSEEDSF---KKCSSEVEAKNKIEELLASLLNRVC----QDGRKPHTVRL 344
>pdb|2ALZ|A Chain A, Ternary Complex Of Hpoli With Dna And Dctp
pdb|3H4B|A Chain A, Ternary Complex Of Human Dna Polymerase Iota With Template
UT AND Incoming Datp
pdb|3H4D|A Chain A, Ternary Complex Of Human Dna Polymerase Iota With Template
UT AND Incoming Dgtp
Length = 390
Score = 83.2 bits (204), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 85/298 (28%), Positives = 131/298 (43%), Gaps = 34/298 (11%)
Query: 6 MRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDL 64
M +AKE CPQ+ LV DL+ YR +V +L ER DE ++DL
Sbjct: 55 MNVRDAKEKCPQLVLV------NGEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDL 108
Query: 65 TDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLA 124
T+ E L + DE+ + H+ +S + D H L+
Sbjct: 109 TEMVEKRLQQLQS---DELSAVTVSGHVYNNQSIN-------------LLDVLHIRLLV- 151
Query: 125 CGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSL- 183
G I E+R + + T AG+A NK+LAKL SG+ KP QQT + S + L+ SL
Sbjct: 152 -GSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLN 210
Query: 184 PIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEV 243
IK++ +G K L+ LG+ +V DL FS L++ G + + ++ G V
Sbjct: 211 HIKEIPGIGYKTAKCLE-ALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPV 269
Query: 244 QARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTL 301
P+S SF + + ++ + +L L R+C Q+ R HT+ L
Sbjct: 270 ILSGPPQSFSEEDSF---KKCSSEVEAKNKIEELLASLLNRVC----QDGRKPHTVRL 320
>pdb|3H40|A Chain A, Binary Complex Of Human Dna Polymerase Iota With Template
UT
Length = 389
Score = 83.2 bits (204), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 85/298 (28%), Positives = 131/298 (43%), Gaps = 34/298 (11%)
Query: 6 MRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDL 64
M +AKE CPQ+ LV DL+ YR +V +L ER DE ++DL
Sbjct: 54 MNVRDAKEKCPQLVLV------NGEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDL 107
Query: 65 TDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLA 124
T+ E L + DE+ + H+ +S + D H L+
Sbjct: 108 TEMVEKRLQQLQS---DELSAVTVSGHVYNNQSIN-------------LLDVLHIRLLV- 150
Query: 125 CGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSL- 183
G I E+R + + T AG+A NK+LAKL SG+ KP QQT + S + L+ SL
Sbjct: 151 -GSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLN 209
Query: 184 PIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEV 243
IK++ +G K L+ LG+ +V DL FS L++ G + + ++ G V
Sbjct: 210 HIKEIPGIGYKTAKCLE-ALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPV 268
Query: 244 QARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTL 301
P+S SF + + ++ + +L L R+C Q+ R HT+ L
Sbjct: 269 ILSGPPQSFSEEDSF---KKCSSEVEAKNKIEELLASLLNRVC----QDGRKPHTVRL 319
>pdb|1T3N|A Chain A, Structure Of The Catalytic Core Of Dna Polymerase Iota In
Complex With Dna And Dttp
pdb|1T3N|B Chain B, Structure Of The Catalytic Core Of Dna Polymerase Iota In
Complex With Dna And Dttp
pdb|1ZET|A Chain A, X-Ray Data Do Not Support Hoogsteen Base-Pairing During
Replication By Human Polymerase Iota
Length = 388
Score = 83.2 bits (204), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 85/298 (28%), Positives = 131/298 (43%), Gaps = 34/298 (11%)
Query: 6 MRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDL 64
M +AKE CPQ+ LV DL+ YR +V +L ER DE ++DL
Sbjct: 53 MNVRDAKEKCPQLVLV------NGEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDL 106
Query: 65 TDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLA 124
T+ E L + DE+ + H+ +S + D H L+
Sbjct: 107 TEMVEKRLQQLQS---DELSAVTVSGHVYNNQSIN-------------LLDVLHIRLLV- 149
Query: 125 CGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSL- 183
G I E+R + + T AG+A NK+LAKL SG+ KP QQT + S + L+ SL
Sbjct: 150 -GSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLN 208
Query: 184 PIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEV 243
IK++ +G K L+ LG+ +V DL FS L++ G + + ++ G V
Sbjct: 209 HIKEIPGIGYKTAKCLE-ALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPV 267
Query: 244 QARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTL 301
P+S SF + + ++ + +L L R+C Q+ R HT+ L
Sbjct: 268 ILSGPPQSFSEEDSF---KKCSSEVEAKNKIEELLASLLNRVC----QDGRKPHTVRL 318
>pdb|3GV5|B Chain B, Human Dna Polymerase Iota In Complex With T Template Dna
And Incoming Ddadp
pdb|3GV5|D Chain D, Human Dna Polymerase Iota In Complex With T Template Dna
And Incoming Ddadp
Length = 420
Score = 81.3 bits (199), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 84/294 (28%), Positives = 128/294 (43%), Gaps = 34/294 (11%)
Query: 10 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILAR-KGRCERASIDEVYLDLTDAA 68
+AKE CPQ+ LV DL+ YR +V +L ER DE ++DLT+
Sbjct: 83 DAKEKCPQLVLV------NGEDLTRYREXSYKVTELLEEFSPVVERLGFDENFVDLTEXV 136
Query: 69 EAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVL 128
E L + DE+ + H+ +S + D H L+ G
Sbjct: 137 EKRLQQLQS---DELSAVTVSGHVYNNQSIN-------------LLDVLHIRLLV--GSQ 178
Query: 129 IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSL-PIKK 187
I E R + T AG+A NK+LAKL SG+ KP QQT + S + L+ SL IK+
Sbjct: 179 IAAEXREAXYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLNHIKE 238
Query: 188 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 247
+ +G K L+ LG+ +V DL FS L++ G + + ++ G V
Sbjct: 239 IPGIGYKTAKCLE-ALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVILSG 297
Query: 248 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTL 301
P+S SF + + ++ + +L L R+C Q+ R HT+ L
Sbjct: 298 PPQSFSEEDSF---KKCSSEVEAKNKIEELLASLLNRVC----QDGRKPHTVRL 344
>pdb|1T94|A Chain A, Crystal Structure Of The Catalytic Core Of Human Dna
Polymerase Kappa
pdb|1T94|B Chain B, Crystal Structure Of The Catalytic Core Of Human Dna
Polymerase Kappa
Length = 459
Score = 70.5 bits (171), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 83/330 (25%), Positives = 143/330 (43%), Gaps = 49/330 (14%)
Query: 2 VVSSMRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERA-SIDEV 60
V ++M G AK +CPQ L+ VP + YR EV ILA A S+DE
Sbjct: 81 VRAAMPGFIAKRLCPQ--LIIVP-----PNFDKYRAVSKEVKEILADYDPNFMAMSLDEA 133
Query: 61 YLDLTDAAE------------------AMLAETPPESLDEVDEEALKSHILGLESKDGND 102
YL++T E ++ + P + ++++ E L E + +D
Sbjct: 134 YLNITKHLEERQNWPEDKRRYFIKMGSSVENDNPGKEVNKLSEHERSISPLLFE-ESPSD 192
Query: 103 SKATVKEWLCRCDADHRDKLLACGVL-------IVTELRMQVLKETEFTCSAGIAHNKML 155
+ + + + ++L V+ +V E+R ++ ++T T SAGIA N ML
Sbjct: 193 VQPPGDPFQVNFEEQNNPQILQNSVVFGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTML 252
Query: 156 AKLASGMNKP-AQQTTVP-FSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLK 213
AK+ S NKP Q +P +V + LPI+K+ + GK+ + LG+ T +L
Sbjct: 253 AKVCSDKNKPNGQYQILPNRQAVMDFIKDLPIRKVSGI-GKVTEKMLKALGIITCTELY- 310
Query: 214 FSEDKLQESYGFNTGTWLW--NIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQ 271
+ + S F+ +W + +I+ G+ + G KS R + +
Sbjct: 311 --QQRALLSLLFSETSWHYFLHISLGLGSTHL------TRDGERKSMSVERTFSEINKAE 362
Query: 272 HWLNQLCEELSERLCSDLEQNKRIAHTLTL 301
+ LC+EL L DL++ + T+T+
Sbjct: 363 EQYS-LCQELCSELAQDLQKERLKGRTVTI 391
>pdb|3PZP|A Chain A, Human Dna Polymerase Kappa Extending Opposite A Cis-Syn
Thymine Dimer
pdb|3PZP|B Chain B, Human Dna Polymerase Kappa Extending Opposite A Cis-Syn
Thymine Dimer
Length = 517
Score = 70.1 bits (170), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 86/331 (25%), Positives = 146/331 (44%), Gaps = 51/331 (15%)
Query: 2 VVSSMRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERA-SIDEV 60
V ++M G AK +CPQ L+ VP + YR EV ILA A S+DE
Sbjct: 137 VRAAMPGFIAKRLCPQ--LIIVP-----PNFDKYRAVSKEVKEILADYDPNFMAMSLDEA 189
Query: 61 YLDLTDAAE------------------AMLAETPPESLDEVDE-EALKSHILGLESKDGN 101
YL++T E ++ + P + ++++ E E S +L ES +
Sbjct: 190 YLNITKHLEERQNWPEDKRRYFIKMGSSVENDNPGKEVNKLSEHERSISPLLFEESP--S 247
Query: 102 DSKATVKEWLCRCDADHRDKLLACGVL-------IVTELRMQVLKETEFTCSAGIAHNKM 154
D + + + + ++L V+ +V E+R ++ ++T T SAGIA N M
Sbjct: 248 DVQPPGDPFQVNFEEQNNPQILQNSVVFGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTM 307
Query: 155 LAKLASGMNKP-AQQTTVP-FSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLL 212
LAK+ S NKP Q +P +V + LPI+K+ + GK+ + LG+ T +L
Sbjct: 308 LAKVCSDKNKPNGQYQILPNRQAVMDFIKDLPIRKVSGI-GKVTEKMLKALGIITCTELY 366
Query: 213 KFSEDKLQESYGFNTGTWLW--NIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASV 270
+ + S F+ +W + +I+ G+ + G KS R +
Sbjct: 367 ---QQRALLSLLFSETSWHYFLHISLGLGSTHL------TRDGERKSMSVERTFSEINKA 417
Query: 271 QHWLNQLCEELSERLCSDLEQNKRIAHTLTL 301
+ + LC+EL L DL++ + T+T+
Sbjct: 418 EEQYS-LCQELCSELAQDLQKERLKGRTVTI 447
>pdb|2OH2|A Chain A, Ternary Complex Of Human Dna Polymerase
pdb|2OH2|B Chain B, Ternary Complex Of Human Dna Polymerase
pdb|2W7O|A Chain A, Structure And Activity Of Bypass Synthesis By Human Dna
Polymerase Kappa Opposite The 7,8-Dihydro-8-
Oxodeoxyguanosine Adduct
pdb|2W7O|B Chain B, Structure And Activity Of Bypass Synthesis By Human Dna
Polymerase Kappa Opposite The 7,8-Dihydro-8-
Oxodeoxyguanosine Adduct
pdb|2W7P|A Chain A, Structure And Activity Of Bypass Synthesis By Human Dna
Polymerase Kappa Opposite The 7,8-Dihydro-8-
Oxodeoxyguanosine Adduct
pdb|2W7P|B Chain B, Structure And Activity Of Bypass Synthesis By Human Dna
Polymerase Kappa Opposite The 7,8-Dihydro-8-
Oxodeoxyguanosine Adduct
pdb|3IN5|A Chain A, Structure Of Human Dna Polymerase Kappa Inserting Datp
Opposite An 8-Oxog Dna Lesion
pdb|3IN5|B Chain B, Structure Of Human Dna Polymerase Kappa Inserting Datp
Opposite An 8-Oxog Dna Lesion
Length = 508
Score = 70.1 bits (170), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 83/330 (25%), Positives = 143/330 (43%), Gaps = 49/330 (14%)
Query: 2 VVSSMRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERA-SIDEV 60
V ++M G AK +CPQ L+ VP + YR EV ILA A S+DE
Sbjct: 130 VRAAMPGFIAKRLCPQ--LIIVP-----PNFDKYRAVSKEVKEILADYDPNFMAMSLDEA 182
Query: 61 YLDLTDAAE------------------AMLAETPPESLDEVDEEALKSHILGLESKDGND 102
YL++T E ++ + P + ++++ E L E + +D
Sbjct: 183 YLNITKHLEERQNWPEDKRRYFIKMGSSVENDNPGKEVNKLSEHERSISPLLFE-ESPSD 241
Query: 103 SKATVKEWLCRCDADHRDKLLACGVL-------IVTELRMQVLKETEFTCSAGIAHNKML 155
+ + + + ++L V+ +V E+R ++ ++T T SAGIA N ML
Sbjct: 242 VQPPGDPFQVNFEEQNNPQILQNSVVFGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTML 301
Query: 156 AKLASGMNKP-AQQTTVP-FSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLK 213
AK+ S NKP Q +P +V + LPI+K+ + GK+ + LG+ T +L
Sbjct: 302 AKVCSDKNKPNGQYQILPNRQAVMDFIKDLPIRKVSGI-GKVTEKMLKALGIITCTELY- 359
Query: 214 FSEDKLQESYGFNTGTWLW--NIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQ 271
+ + S F+ +W + +I+ G+ + G KS R + +
Sbjct: 360 --QQRALLSLLFSETSWHYFLHISLGLGSTHL------TRDGERKSMSVERTFSEINKAE 411
Query: 272 HWLNQLCEELSERLCSDLEQNKRIAHTLTL 301
+ LC+EL L DL++ + T+T+
Sbjct: 412 EQYS-LCQELCSELAQDLQKERLKGRTVTI 440
>pdb|1JIH|A Chain A, Yeast Dna Polymerase Eta
pdb|1JIH|B Chain B, Yeast Dna Polymerase Eta
Length = 513
Score = 63.5 bits (153), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 85/327 (25%), Positives = 128/327 (39%), Gaps = 69/327 (21%)
Query: 22 QVPVARGKADLSSYRNAGSEVVSILARKGRC---ERASIDEVYLDLTDAAEAMLAETP-- 76
Q+ V K L YR + + I K C ERASIDEV+LDL ML
Sbjct: 118 QISVEDHKVSLEPYRRESRKALKIF--KSACDLVERASIDEVFLDLGRICFNMLMFDNEY 175
Query: 77 --------PESLDEVDEEAL------KSHI---------LGLESKDGN-DSKATVKEWLC 112
++L + E + SH+ L E N + + + +W
Sbjct: 176 ELTGDLKLKDALSNIREAFIGGNYDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDW-- 233
Query: 113 RCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVP 172
D +LA G + +R + +T S G++ K + KLAS KP QT V
Sbjct: 234 ------DDVILALGSQVCKGIRDSIKDILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVK 287
Query: 173 FSSVKGLLD--SLPIKKMKQLGGKLGTSLQNELGV--------------TTVGDLLKFSE 216
+ LD I LGG LG L + L + G L +F +
Sbjct: 288 NDCLLDFLDCGKFEITSFWTLGGVLGKELIDVLDLPHENSIKHIRETWPDNAGQLKEFLD 347
Query: 217 DKLQES-YGFNTGTW-----------LWNIARGISGEEVQARLLPKSHGSGKSFPGPRAL 264
K+++S Y +T L+ ++RG G + +R + KS S K+ G ++
Sbjct: 348 AKVKQSDYDRSTSNIDPLKTADLAEKLFKLSRGRYGLPLSSRPVVKSMMSNKNLRG-KSC 406
Query: 265 KTVASVQHWLNQLCEELSERLCSDLEQ 291
++ WL C EL+ R+ DLEQ
Sbjct: 407 NSIVDCISWLEVFCAELTSRI-QDLEQ 432
>pdb|3MFH|A Chain A, Dna Polymerase Eta In Complex With Undamaged Dna
pdb|3MFI|A Chain A, Dna Polymerase Eta In Complex With A Cis-Syn Thymidine
Dimer
pdb|3OHA|A Chain A, Yeast Dna Polymerase Eta Inserting Dctp Opposite An 8oxog
Lesion
pdb|3OHB|A Chain A, Yeast Dna Polymerase Eta Extending From An 8-Oxog Lesion
Length = 520
Score = 63.5 bits (153), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 85/327 (25%), Positives = 129/327 (39%), Gaps = 69/327 (21%)
Query: 22 QVPVARGKADLSSYRNAGSEVVSILARKGRC---ERASIDEVYLDLTDAAEAMLAETP-- 76
Q+ V K L YR + ++I K C ERASIDEV+LDL ML
Sbjct: 125 QISVEDHKVSLEPYRRESRKALAIF--KWACDLVERASIDEVFLDLGRICFNMLMFDNEY 182
Query: 77 --------PESLDEVDEEAL------KSHI---------LGLESKDGN-DSKATVKEWLC 112
++L + E + SH+ L E N + + + +W
Sbjct: 183 ELTGDLKLKDALSNIREAFIGGNYDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDW-- 240
Query: 113 RCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVP 172
D +LA G + +R + +T S G++ K + KLAS KP QT V
Sbjct: 241 ------DDVILALGSQVCKGIRDSIKDILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVK 294
Query: 173 FSSVKGLLD--SLPIKKMKQLGGKLGTSLQNELGV--------------TTVGDLLKFSE 216
+ LD I LGG LG L + L + G L +F +
Sbjct: 295 NDCLLDFLDCGKFEITSFWTLGGVLGKELIDVLDLPHENSIKHIRETWPDNAGQLKEFLD 354
Query: 217 DKLQES-YGFNTGTW-----------LWNIARGISGEEVQARLLPKSHGSGKSFPGPRAL 264
K+++S Y +T L+ ++RG G + +R + KS S K+ G ++
Sbjct: 355 AKVKQSDYDRSTSNIDPLKTADLAEKLFKLSRGRYGLPLSSRPVVKSMMSNKNLRG-KSC 413
Query: 265 KTVASVQHWLNQLCEELSERLCSDLEQ 291
++ WL C EL+ R+ DLEQ
Sbjct: 414 NSIVDCISWLEVFCAELTSRI-QDLEQ 439
>pdb|2WTF|A Chain A, Dna Polymerase Eta In Complex With The
Cis-Diammineplatinum (Ii) 1,3-Gtg Intrastrand Cross-Link
pdb|2WTF|B Chain B, Dna Polymerase Eta In Complex With The
Cis-Diammineplatinum (Ii) 1,3-Gtg Intrastrand Cross-Link
pdb|2XGP|A Chain A, Yeast Dna Polymerase Eta In Complex With C8-2-
Acetylaminofluorene Containing Dna
pdb|2XGP|B Chain B, Yeast Dna Polymerase Eta In Complex With C8-2-
Acetylaminofluorene Containing Dna
pdb|2XGQ|A Chain A, Structure Of Yeast Dna Polymerase Eta In Complex With
C8-N- Acetyl-2-Aminoanthracene Containing Dna
pdb|2XGQ|B Chain B, Structure Of Yeast Dna Polymerase Eta In Complex With
C8-N- Acetyl-2-Aminoanthracene Containing Dna
Length = 536
Score = 63.5 bits (153), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 85/327 (25%), Positives = 128/327 (39%), Gaps = 69/327 (21%)
Query: 22 QVPVARGKADLSSYRNAGSEVVSILARKGRC---ERASIDEVYLDLTDAAEAMLAETP-- 76
Q+ V K L YR + + I K C ERASIDEV+LDL ML
Sbjct: 141 QISVEDHKVSLEPYRRESRKALKIF--KSACDLVERASIDEVFLDLGRICFNMLMFDNEY 198
Query: 77 --------PESLDEVDEEAL------KSHI---------LGLESKDGN-DSKATVKEWLC 112
++L + E + SH+ L E N + + + +W
Sbjct: 199 ELTGDLKLKDALSNIREAFIGGNYDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDW-- 256
Query: 113 RCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVP 172
D +LA G + +R + +T S G++ K + KLAS KP QT V
Sbjct: 257 ------DDVILALGSQVCKGIRDSIKDILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVK 310
Query: 173 FSSVKGLLD--SLPIKKMKQLGGKLGTSLQNELGV--------------TTVGDLLKFSE 216
+ LD I LGG LG L + L + G L +F +
Sbjct: 311 NDCLLDFLDCGKFEITSFWTLGGVLGKELIDVLDLPHENSIKHIRETWPDNAGQLKEFLD 370
Query: 217 DKLQES-YGFNTGTW-----------LWNIARGISGEEVQARLLPKSHGSGKSFPGPRAL 264
K+++S Y +T L+ ++RG G + +R + KS S K+ G ++
Sbjct: 371 AKVKQSDYDRSTSNIDPLKTADLAEKLFKLSRGRYGLPLSSRPVVKSMMSNKNLRG-KSC 429
Query: 265 KTVASVQHWLNQLCEELSERLCSDLEQ 291
++ WL C EL+ R+ DLEQ
Sbjct: 430 NSIVDCISWLEVFCAELTSRI-QDLEQ 455
>pdb|2R8J|A Chain A, Structure Of The Eukaryotic Dna Polymerase Eta In Complex
With 1,2- D(gpg)-cisplatin Containing Dna
pdb|2R8J|B Chain B, Structure Of The Eukaryotic Dna Polymerase Eta In Complex
With 1,2- D(gpg)-cisplatin Containing Dna
pdb|2R8K|A Chain A, Structure Of The Eukaryotic Dna Polymerase Eta In Complex
With 1,2- D(gpg)-cisplatin Containing Dna
pdb|2R8K|B Chain B, Structure Of The Eukaryotic Dna Polymerase Eta In Complex
With 1,2- D(gpg)-cisplatin Containing Dna
Length = 554
Score = 63.2 bits (152), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 85/327 (25%), Positives = 128/327 (39%), Gaps = 69/327 (21%)
Query: 22 QVPVARGKADLSSYRNAGSEVVSILARKGRC---ERASIDEVYLDLTDAAEAMLAETP-- 76
Q+ V K L YR + + I K C ERASIDEV+LDL ML
Sbjct: 141 QISVEDHKVSLEPYRRESRKALKIF--KSACDLVERASIDEVFLDLGRICFNMLMFDNEY 198
Query: 77 --------PESLDEVDEEAL------KSHI---------LGLESKDGN-DSKATVKEWLC 112
++L + E + SH+ L E N + + + +W
Sbjct: 199 ELTGDLKLKDALSNIREAFIGGNYDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDW-- 256
Query: 113 RCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVP 172
D +LA G + +R + +T S G++ K + KLAS KP QT V
Sbjct: 257 ------DDVILALGSQVCKGIRDSIKDILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVK 310
Query: 173 FSSVKGLLD--SLPIKKMKQLGGKLGTSLQNELGV--------------TTVGDLLKFSE 216
+ LD I LGG LG L + L + G L +F +
Sbjct: 311 NDCLLDFLDCGKFEITSFWTLGGVLGKELIDVLDLPHENSIKHIRETWPDNAGQLKEFLD 370
Query: 217 DKLQES-YGFNTGTW-----------LWNIARGISGEEVQARLLPKSHGSGKSFPGPRAL 264
K+++S Y +T L+ ++RG G + +R + KS S K+ G ++
Sbjct: 371 AKVKQSDYDRSTSNIDPLKTADLAEKLFKLSRGRYGLPLSSRPVVKSMMSNKNLRG-KSC 429
Query: 265 KTVASVQHWLNQLCEELSERLCSDLEQ 291
++ WL C EL+ R+ DLEQ
Sbjct: 430 NSIVDCISWLEVFCAELTSRI-QDLEQ 455
>pdb|4DEZ|A Chain A, Structure Of Msdpo4
Length = 356
Score = 62.8 bits (151), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 42/134 (31%), Positives = 66/134 (49%), Gaps = 2/134 (1%)
Query: 127 VLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIK 186
V + +R V ET +CS GI+ NK AK+A+G KPA + ++ ++ P
Sbjct: 122 VEVAERIRTVVAAETGLSCSVGISDNKQRAKVATGFAKPAGIYVLTEANWMTVMGDRPPD 181
Query: 187 KMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQAR 246
+ +G K L +G+TTV DL L ++G +TG WL +A+G EV +
Sbjct: 182 ALWGVGPKTTKKLAA-MGITTVADLAVTDPSVLTTAFGPSTGLWLLLLAKGGGDTEVSSE 240
Query: 247 -LLPKSHGSGKSFP 259
+P+S +FP
Sbjct: 241 PWVPRSRSHVVTFP 254
>pdb|3GQC|A Chain A, Structure Of Human Rev1-Dna-Dntp Ternary Complex
pdb|3GQC|B Chain B, Structure Of Human Rev1-Dna-Dntp Ternary Complex
pdb|3GQC|C Chain C, Structure Of Human Rev1-Dna-Dntp Ternary Complex
pdb|3GQC|D Chain D, Structure Of Human Rev1-Dna-Dntp Ternary Complex
Length = 504
Score = 57.0 bits (136), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 45/167 (26%), Positives = 77/167 (46%), Gaps = 11/167 (6%)
Query: 133 LRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLG 192
+RM++ +T+ S GI N +LA++A+ KP Q + V + + + +G
Sbjct: 265 VRMEIKDQTKCAASVGIGSNILLARMATRKAKPDGQYHLKPEEVDDFIRGQLVTNLPGVG 324
Query: 193 GKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSH 252
+ + L + LG+ T GDL + KLQ+ +G TG L+ RG+ V+ KS
Sbjct: 325 HSMESKLAS-LGIKTCGDLQYMTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKERKSV 383
Query: 253 GS----GKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRI 295
+ G F P+ + +L L EE+ RL + + KR+
Sbjct: 384 SAEINYGIRFTQPK------EAEAFLLSLSEEIQRRLEATGMKGKRL 424
>pdb|4F4Z|B Chain B, Y-family Dna Polymerase Chimera Dpo4-dpo4-dbh
pdb|4F4Z|A Chain A, Y-family Dna Polymerase Chimera Dpo4-dpo4-dbh
Length = 361
Score = 57.0 bits (136), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 61/272 (22%), Positives = 109/272 (40%), Gaps = 64/272 (23%)
Query: 10 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDAA 68
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 63 EAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKV 115
Query: 69 EAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVL 128
+ +++ LGLE K+
Sbjct: 116 R----------------DYREAYNLGLEIKN----------------------------- 130
Query: 129 IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKM 188
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I +
Sbjct: 131 -------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADV 183
Query: 189 KQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLL 248
+G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 184 PGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV- 241
Query: 249 PKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 280
G+ P + V + +L + E
Sbjct: 242 --RKSIGRYLTLPYNTRDVKVILPYLKKAINE 271
>pdb|2RDI|A Chain A, Snapshots Of A Y-family Dna Polymerase In Replication:
Dpo4 In Apo And Binary/ternary Complex Forms
Length = 342
Score = 57.0 bits (136), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 61/272 (22%), Positives = 111/272 (40%), Gaps = 64/272 (23%)
Query: 10 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDAA 68
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 63 EAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKV 115
Query: 69 EAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVL 128
+ +++ LGLE K+
Sbjct: 116 R----------------DYREAYNLGLEIKN----------------------------- 130
Query: 129 IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKM 188
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I +
Sbjct: 131 -------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADV 183
Query: 189 KQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLL 248
+G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 184 PGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV- 241
Query: 249 PKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 280
G+ R + + ++ +L + EE
Sbjct: 242 --RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 271
>pdb|3PR4|A Chain A, Dpo4 Y12a Mutant Incorporating Dadp Opposite Template Dt
pdb|3PR5|B Chain B, Dpo4 Y12a Mutant Incorporating Adp Opposite Template Dt
Length = 341
Score = 57.0 bits (136), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 61/272 (22%), Positives = 111/272 (40%), Gaps = 64/272 (23%)
Query: 10 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDAA 68
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 63 EAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKV 115
Query: 69 EAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVL 128
+ +++ LGLE K+
Sbjct: 116 R----------------DYREAYNLGLEIKN----------------------------- 130
Query: 129 IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKM 188
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I +
Sbjct: 131 -------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADV 183
Query: 189 KQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLL 248
+G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 184 PGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV- 241
Query: 249 PKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 280
G+ R + + ++ +L + EE
Sbjct: 242 --RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 271
>pdb|3V6K|A Chain A, Replication Of N2,3-Ethenoguanine By Dna Polymerases
pdb|3V6K|J Chain J, Replication Of N2,3-Ethenoguanine By Dna Polymerases
Length = 347
Score = 57.0 bits (136), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 61/272 (22%), Positives = 111/272 (40%), Gaps = 64/272 (23%)
Query: 10 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDAA 68
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 68 EAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKV 120
Query: 69 EAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVL 128
+ +++ LGLE K+
Sbjct: 121 R----------------DYREAYNLGLEIKN----------------------------- 135
Query: 129 IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKM 188
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I +
Sbjct: 136 -------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADV 188
Query: 189 KQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLL 248
+G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 189 PGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV- 246
Query: 249 PKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 280
G+ R + + ++ +L + EE
Sbjct: 247 --RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 276
>pdb|3V6H|A Chain A, Replication Of N2,3-Ethenoguanine By Dna Polymerases
pdb|3V6H|B Chain B, Replication Of N2,3-Ethenoguanine By Dna Polymerases
pdb|3V6J|A Chain A, Replication Of N2,3-Ethenoguanine By Dna Polymerases
pdb|3V6J|J Chain J, Replication Of N2,3-Ethenoguanine By Dna Polymerases
Length = 348
Score = 57.0 bits (136), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 61/272 (22%), Positives = 111/272 (40%), Gaps = 64/272 (23%)
Query: 10 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDAA 68
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 69 EAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKV 121
Query: 69 EAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVL 128
+ +++ LGLE K+
Sbjct: 122 R----------------DYREAYNLGLEIKN----------------------------- 136
Query: 129 IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKM 188
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I +
Sbjct: 137 -------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADV 189
Query: 189 KQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLL 248
+G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 190 PGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV- 247
Query: 249 PKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 280
G+ R + + ++ +L + EE
Sbjct: 248 --RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 277
>pdb|2ASD|A Chain A, Oxog-Modified Insertion Ternary Complex
pdb|2ASD|B Chain B, Oxog-Modified Insertion Ternary Complex
pdb|2ASJ|A Chain A, Oxog-Modified Preinsertion Binary Complex
pdb|2ASJ|B Chain B, Oxog-Modified Preinsertion Binary Complex
pdb|2ASL|A Chain A, Oxog-Modified Postinsertion Binary Complex
pdb|2ASL|B Chain B, Oxog-Modified Postinsertion Binary Complex
pdb|2ATL|A Chain A, Unmodified Insertion Ternary Complex
pdb|2ATL|B Chain B, Unmodified Insertion Ternary Complex
pdb|2AU0|A Chain A, Unmodified Preinsertion Binary Complex
pdb|2AU0|B Chain B, Unmodified Preinsertion Binary Complex
Length = 360
Score = 57.0 bits (136), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 61/272 (22%), Positives = 111/272 (40%), Gaps = 64/272 (23%)
Query: 10 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDAA 68
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 71 EAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKV 123
Query: 69 EAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVL 128
+ +++ LGLE K+
Sbjct: 124 R----------------DYREAYNLGLEIKN----------------------------- 138
Query: 129 IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKM 188
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I +
Sbjct: 139 -------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADV 191
Query: 189 KQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLL 248
+G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 192 PGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV- 249
Query: 249 PKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 280
G+ R + + ++ +L + EE
Sbjct: 250 --RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 279
>pdb|2UVV|A Chain A, Crystal Structures Of Mutant Dpo4 Dna Polymerases With 8-
Oxog Containing Dna Template-Primer Constructs
pdb|2UVW|A Chain A, Crystal Structures Of Mutant Dpo4 Dna Polymerases With 8-
Oxog Containing Dna Template-Primer Constructs
Length = 358
Score = 57.0 bits (136), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 61/272 (22%), Positives = 111/272 (40%), Gaps = 64/272 (23%)
Query: 10 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDAA 68
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 69 EAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKV 121
Query: 69 EAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVL 128
+ +++ LGLE K+
Sbjct: 122 R----------------DYREAYNLGLEIKN----------------------------- 136
Query: 129 IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKM 188
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I +
Sbjct: 137 -------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADV 189
Query: 189 KQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLL 248
+G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 190 PGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV- 247
Query: 249 PKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 280
G+ R + + ++ +L + EE
Sbjct: 248 --RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 277
>pdb|2BQ3|A Chain A, Dna Adduct Bypass Polymerization By Sulfolobus
Solfataricus Dpo4. Analysis And Crystal Structures Of
Multiple Base- Pair Substitution And Frameshift Products
With The Adduct 1,N2-Ethenoguanine
pdb|2BQR|A Chain A, Dna Adduct Bypass Polymerization By Sulfolobus
Solfataricus Dpo4. Analysis And Crystal Structures Of
Multiple Base- Pair Substitution And Frameshift Products
With The Adduct 1,N2-Ethenoguanine
pdb|2BQU|A Chain A, Dna Adduct Bypass Polymerization By Sulfolobus
Solfataricus Dpo4. Analysis And Crystal Structures Of
Multiple Base- Pair Substitution And Frameshift Products
With The Adduct 1,N2-Ethenoguanine
pdb|2BR0|A Chain A, Dna Adduct Bypass Polymerization By Sulfolobus
Solfataricus Dpo4. Analysis And Crystal Structures Of
Multiple Base- Pair Substitution And Frameshift Products
With The Adduct 1,N2-Ethenoguanine
pdb|2C22|A Chain A, Efficient And High Fidelity Incorporation Of Dctp Opposite
7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus
Solfataricus Dna Polymerase Dpo4
pdb|2C28|A Chain A, Efficient And High Fidelity Incorporation Of Dctp Opposite
7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus
Solfataricus Dna Polymerase Dpo4
pdb|2C2D|A Chain A, Efficient And High Fidelity Incorporation Of Dctp Opposite
7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus
Solfataricus Dna Polymerase Dpo4
pdb|2C2E|A Chain A, Efficient And High Fidelity Incorporation Of Dctp Opposite
7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus
Solfataricus Dna Polymerase Dpo4
pdb|2C2R|A Chain A, Efficient And High Fidelity Incorporation Of Dctp Opposite
7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus
Solfataricus Dna Polymerase Dpo4
pdb|2J6S|A Chain A, Ternary Complex Of Sulfolobus Solfataricus Dpo4 Dna
Polymerase, O6-Methylguanine Modified Dna, And Datp.
pdb|2J6T|A Chain A, Ternary Complex Of Sulfolobus Solfataricus Dpo4 Dna
Polymerase, O6-Methylguanine Modified Dna, And Datp.
pdb|2J6U|A Chain A, Ternary Complex Of Sulfolobus Solfataricus Dpo4 Dna
Polymerase, O6-methylguanine Modified Dna, And Dgtp.
pdb|2JEF|A Chain A, The Molecular Basis Of Selectivity Of Nucleotide
Triphosphate Incorporation Opposite O6-benzylguanine By
Sulfolobus Solfataricus Dna Polymerase Iv: Steady-state
And Pre-steady-state And X-ray Crystallography Of
Correct And Incorrect Pairing
pdb|2JEG|A Chain A, The Molecular Basis Of Selectivity Of Nucleoside
Triphosphate Incorporation Opposite O6-Benzylguanine By
Sulfolobus Solfataricus Dna Polymerase Iv: Steady-State
And Pre-Steady-State Kinetics And X-Ray Crystallography
Of Correct And Incorrect Pairing
pdb|2JEI|A Chain A, The Molecular Basis Of Selectivity Of Nucleoside
Triphosphate Incorporation Opposite O6-benzylguanine By
Sulfolobus Solfataricus Dna Polymerase Iv: Steady-state
And Pre-steady-state Kinetics And X-ray Crystallography
Of Correct And Incorrect Pairing
pdb|2JEJ|A Chain A, The Molecular Basis Of Selectivity Of Nucleoside
Triphosphate Incorporation Opposite O6-Benzylguanine By
Sulfolobus Solfataricus Dna Polymerase Iv: Steady-State
And Pre-Steady-State Kinetics And X-Ray Crystallography
Of Correct And Incorrect Pairing
pdb|2V9W|A Chain A, Complex Structure Of Sulfolobus Solfataricus Dpo4 And Dna
Duplex Containing A Hydrophobic Thymine Isostere 2,4-
Difluorotoluene Nucleotide In The Template Strand
pdb|2V9W|B Chain B, Complex Structure Of Sulfolobus Solfataricus Dpo4 And Dna
Duplex Containing A Hydrophobic Thymine Isostere 2,4-
Difluorotoluene Nucleotide In The Template Strand
pdb|2VA2|A Chain A, Complex Structure Of Sulfolobus Solfataricus Dpo4 And Dna
Duplex Containing A Hydrophobic Thymine Isostere 2,4-
Difluorotoluene Nucleotide In The Template Strand
pdb|2VA2|B Chain B, Complex Structure Of Sulfolobus Solfataricus Dpo4 And Dna
Duplex Containing A Hydrophobic Thymine Isostere 2,4-
Difluorotoluene Nucleotide In The Template Strand
pdb|2VA3|A Chain A, Complex Structure Of Sulfolobus Solfataricus Dpo4 And Dna
Duplex Containing A Hydrophobic Thymine Isostere 2,4-
Difluorotoluene Nucleotide In The Template Strand
pdb|2W8K|A Chain A, Y-Family Dna Polymerase Dpo4 Bypassing N2-Naphthyl-Guanine
Adduct In Syn Orientation
pdb|2W8L|A Chain A, Y-Family Dna Polymerase Dpo4 Bypassing N2-Naphthyl-Guanine
Adduct In Anti Orientation
pdb|2W9A|A Chain A, Ternary Complex Of Dpo4 Bound To N2,N2-Dimethyl-
Deoxyguanosine Modified Dna With Incoming Dgtp
pdb|2W9B|B Chain B, Binary Complex Of Dpo4 Bound To N2,N2-Dimethyl-
Deoxyguanosine Modified Dna
pdb|2W9C|B Chain B, Ternary Complex Of Dpo4 Bound To N2,N2-Dimethyl-
Deoxyguanosine Modified Dna With Incoming Dttp
pdb|2V4Q|A Chain A, Post-Insertion Complex Of The Y-Family Dna Polymerase Dpo4
With M1dg Containing Template Dna
pdb|2V4R|A Chain A, Non-Productive Complex Of The Y-Family Dna Polymerase Dpo4
With Dgtp Skipping The M1dg Adduct To Pair With The Next
Template Cytosine
pdb|2XC9|A Chain A, Binary Complex Of Sulfolobus Solfataricus Dpo4 Dna
Polymerase And 1,N2-Ethenoguanine Modified Dna,
Magnesium Form
pdb|2XCA|A Chain A, Ternary Complex Of Sulfolobus Solfataricus Dpo4 Dna
Polymerase, 7,8-Dihydro-8-Oxodeoxyguanine Modified Dna
And Dgtp - Magnesium Form
pdb|2XCP|A Chain A, Ternary Complex Of Sulfolobus Solfataricus Dpo4 Dna
Polymerase, 7,8-Dihydro-8-Oxodeoxyguanine Modified Dna
And Dctp - Magnesium Form
pdb|2XCP|B Chain B, Ternary Complex Of Sulfolobus Solfataricus Dpo4 Dna
Polymerase, 7,8-Dihydro-8-Oxodeoxyguanine Modified Dna
And Dctp - Magnesium Form
pdb|4GC6|A Chain A, Crystal Structure Of Dpo4 In Complex With N-mc-damp
Opposite Dt
Length = 358
Score = 57.0 bits (136), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 61/272 (22%), Positives = 111/272 (40%), Gaps = 64/272 (23%)
Query: 10 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDAA 68
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 69 EAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKV 121
Query: 69 EAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVL 128
+ +++ LGLE K+
Sbjct: 122 R----------------DYREAYNLGLEIKN----------------------------- 136
Query: 129 IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKM 188
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I +
Sbjct: 137 -------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADV 189
Query: 189 KQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLL 248
+G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 190 PGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV- 247
Query: 249 PKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 280
G+ R + + ++ +L + EE
Sbjct: 248 --RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 277
>pdb|1JXL|A Chain A, Crystal Structure Of A Y-Family Dna Polymerase In A
Ternary Complex With Dna Substrates And An Incoming
Nucleotide
pdb|1N48|A Chain A, Y-Family Dna Polymerase Dpo4 In Complex With Dna
Containing Abasic Lesion
pdb|1N56|A Chain A, Y-Family Dna Polymerase Dpo4 In Complex With Dna
Containing Abasic Lesion
pdb|1N56|B Chain B, Y-Family Dna Polymerase Dpo4 In Complex With Dna
Containing Abasic Lesion
pdb|1RYR|A Chain A, Replication Of A Cis-Syn Thymine Dimer At Atomic
Resolution
pdb|1RYS|A Chain A, Replication Of A Cis-Syn Thymine Dimer At Atomic
Resolution
pdb|1RYS|B Chain B, Replication Of A Cis-Syn Thymine Dimer At Atomic
Resolution
pdb|1S0M|A Chain A, Crystal Structure Of A Benzo[a]pyrene Diol Epoxide Adduct
In A Ternary Complex With A Dna Polymerase
pdb|1S0M|B Chain B, Crystal Structure Of A Benzo[a]pyrene Diol Epoxide Adduct
In A Ternary Complex With A Dna Polymerase
pdb|1S0N|A Chain A, Snapshots Of Replication Through An Abasic Lesion:
Structural Basis For Base Substitution And Frameshift
pdb|1S0O|A Chain A, Snapshots Of Replication Through An Abasic Lesion:
Structural Basis For Base Substitution And Frameshift
pdb|1S0O|B Chain B, Snapshots Of Replication Through An Abasic Lesion:
Structural Basis For Base Substitution And Frameshift
pdb|1S10|A Chain A, Snapshots Of Replication Through An Abasic Lesion:
Structural Basis For Base Substitution And Frameshift
pdb|1S97|A Chain A, Dpo4 With Gt Mismatch
pdb|1S97|B Chain B, Dpo4 With Gt Mismatch
pdb|1S97|C Chain C, Dpo4 With Gt Mismatch
pdb|1S97|D Chain D, Dpo4 With Gt Mismatch
pdb|1S9F|A Chain A, Dpo With At Matched
pdb|1S9F|B Chain B, Dpo With At Matched
pdb|1S9F|C Chain C, Dpo With At Matched
pdb|1S9F|D Chain D, Dpo With At Matched
pdb|2IA6|A Chain A, Bypass Of Major Benzopyrene-Dg Adduct By Y-Family Dna
Polymerase With Unique Structural Gap
pdb|2IA6|B Chain B, Bypass Of Major Benzopyrene-Dg Adduct By Y-Family Dna
Polymerase With Unique Structural Gap
pdb|2IBK|A Chain A, Bypass Of Major Benzopyrene-Dg Adduct By Y-Family Dna
Polymerase With Unique Structural Gap
pdb|2RDJ|A Chain A, Snapshots Of A Y-family Dna Polymerase In Replication:
Dpo4 In Apo And Binary/ternary Complex Forms
pdb|2RDJ|B Chain B, Snapshots Of A Y-family Dna Polymerase In Replication:
Dpo4 In Apo And Binary/ternary Complex Forms
pdb|2R8G|A Chain A, Selectivity Of Nucleoside Triphosphate Incorporation
Opposite 1,N2-Propanodeoxyguanosine (Pdg) By The
Sulfolobus Solfataricus Dna Polymerase Dpo4 Polymerase
pdb|2R8H|A Chain A, Selectivity Of Nucleoside Triphosphate Incorporation
Opposite 1,N2- Propanodeoxyguanosine (Pdg) By The
Sulfolobus Solfataricus Dna Polymerase Dpo4 Polymerase
pdb|2R8I|A Chain A, Selectivity Of Nucleoside Triphosphate Incorporation
Opposite 1,N2-Propanodeoxyguanosine (Pdg) By The
Sulfolobus Solfataricus Dna Polymerase Dpo4 Polymerase
pdb|3FDS|A Chain A, Structural Insight Into Recruitment Of Translesion Dna
Polymerase Dpo4 To Sliding Clamp Pcna
pdb|3M9M|B Chain B, Crystal Structure Of Dpo4 In Complex With Dna Containing
The Major Cisplatin Lesion
pdb|3M9N|B Chain B, Crystal Structure Of Dpo4 In Complex With Dna Containing
The Major Cisplatin Lesion
pdb|3M9O|B Chain B, Crystal Structure Of Dpo4 In Complex With Dna Containing
The Major Cisplatin Lesion
Length = 352
Score = 57.0 bits (136), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 61/272 (22%), Positives = 111/272 (40%), Gaps = 64/272 (23%)
Query: 10 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDAA 68
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 63 EAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKV 115
Query: 69 EAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVL 128
+ +++ LGLE K+
Sbjct: 116 R----------------DYREAYNLGLEIKN----------------------------- 130
Query: 129 IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKM 188
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I +
Sbjct: 131 -------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADV 183
Query: 189 KQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLL 248
+G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 184 PGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV- 241
Query: 249 PKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 280
G+ R + + ++ +L + EE
Sbjct: 242 --RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 271
>pdb|4GC7|A Chain A, Crystal Structure Of Dpo4 In Complex With S-mc-dadp
Opposite Dt
pdb|4GC7|B Chain B, Crystal Structure Of Dpo4 In Complex With S-mc-dadp
Opposite Dt
Length = 359
Score = 57.0 bits (136), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 61/272 (22%), Positives = 111/272 (40%), Gaps = 64/272 (23%)
Query: 10 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDAA 68
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 70 EAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKV 122
Query: 69 EAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVL 128
+ +++ LGLE K+
Sbjct: 123 R----------------DYREAYNLGLEIKN----------------------------- 137
Query: 129 IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKM 188
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I +
Sbjct: 138 -------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADV 190
Query: 189 KQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLL 248
+G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 191 PGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV- 248
Query: 249 PKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 280
G+ R + + ++ +L + EE
Sbjct: 249 --RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 278
>pdb|2AGO|A Chain A, Fidelity Of Dpo4: Effect Of Metal Ions, Nucleotide
Selection And Pyrophosphorolysis
pdb|2AGP|A Chain A, Fidelity Of Dpo4: Effect Of Metal Ions, Nucleotide
Selection And Pyrophosphorolysis
pdb|2AGP|B Chain B, Fidelity Of Dpo4: Effect Of Metal Ions, Nucleotide
Selection And Pyrophosphorolysis
pdb|2AGQ|A Chain A, Fidelity Of Dpo4: Effect Of Metal Ions, Nucleotide
Selection And Pyrophosphorolysis
pdb|3T5H|A Chain A, Ternary Complex Of Hne Adduct Modified Dna (5'-Cxg-3' Vs
13-Mer) With Dpo4 And Incoming Ddgt
pdb|3T5J|A Chain A, Ternary Complex Of Hne Adduct Modified Dna (5'-Txg-3' Vs
13-Mer) With Dpo4 And Incoming Ddtp
pdb|3T5K|A Chain A, Ternary Complex Of Hne Adduct Modified Dna (5'-Txg-3' Vs
14-Mer) With Dpo4 And Incoming Ddtp
pdb|3T5L|A Chain A, Ternary Complex Of Hne Adduct Modified Dna (5'-Cxg-3' Vs
14-Mer) With Dpo4 And Incoming Ddgt
Length = 341
Score = 56.6 bits (135), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 61/272 (22%), Positives = 111/272 (40%), Gaps = 64/272 (23%)
Query: 10 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDAA 68
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 63 EAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKV 115
Query: 69 EAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVL 128
+ +++ LGLE K+
Sbjct: 116 R----------------DYREAYNLGLEIKN----------------------------- 130
Query: 129 IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKM 188
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I +
Sbjct: 131 -------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADV 183
Query: 189 KQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLL 248
+G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 184 PGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV- 241
Query: 249 PKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 280
G+ R + + ++ +L + EE
Sbjct: 242 --RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 271
>pdb|3PVX|A Chain A, Binary Complex Of Aflatoxin B1 Adduct Modified Dna
(Afb1-Fapy) With Dna Polymerase Iv
pdb|3PW0|A Chain A, Ternary Complex Of Aflatoxin B1 Adduct Modified Dna
(Afb1-Fapy) With Dna Polymerase Iv And Incoming Datp
pdb|3PW2|A Chain A, Ternary Complex Of Aflatoxin B1 Adduct Modified Dna
(Afb1-Fapy) With Dna Polymerase Iv And Incoming Dttp
pdb|3PW4|A Chain A, Ternary Complex Of Aflatoxin B1 Adduct Modified Dna
(Afb1-N7-Gua) With Dna Polymerase Iv And Incoming Datp
pdb|3PW5|A Chain A, Ternary Complex Of Aflatoxin B1 Adduct Modified Dna
(Afb1-N7-Gua) With Dna Polymerase Iv And Incoming Dttp
pdb|3PW7|A Chain A, Ternary Complex Of Aflatoxin B1 Adduct Modified Dna
(Afb1-N7-Gua) With Dna Polymerase Iv And Incoming Dctp
pdb|3PW7|E Chain E, Ternary Complex Of Aflatoxin B1 Adduct Modified Dna
(Afb1-N7-Gua) With Dna Polymerase Iv And Incoming Dctp
Length = 347
Score = 56.6 bits (135), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 61/272 (22%), Positives = 111/272 (40%), Gaps = 64/272 (23%)
Query: 10 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDAA 68
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 69 EAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKV 121
Query: 69 EAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVL 128
+ +++ LGLE K+
Sbjct: 122 R----------------DYREAYNLGLEIKN----------------------------- 136
Query: 129 IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKM 188
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I +
Sbjct: 137 -------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADV 189
Query: 189 KQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLL 248
+G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 190 PGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV- 247
Query: 249 PKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 280
G+ R + + ++ +L + EE
Sbjct: 248 --RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 277
>pdb|2IMW|P Chain P, Mechanism Of Template-Independent Nucleotide Incorporation
Catalyzed By A Template-Dependent Dna Polymerase
Length = 348
Score = 56.6 bits (135), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 61/272 (22%), Positives = 111/272 (40%), Gaps = 64/272 (23%)
Query: 10 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDAA 68
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 63 EAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKV 115
Query: 69 EAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVL 128
+ +++ LGLE K+
Sbjct: 116 R----------------DYREAYNLGLEIKN----------------------------- 130
Query: 129 IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKM 188
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I +
Sbjct: 131 -------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADV 183
Query: 189 KQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLL 248
+G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 184 PGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV- 241
Query: 249 PKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 280
G+ R + + ++ +L + EE
Sbjct: 242 --RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 271
>pdb|3GII|A Chain A, Dpo4 Extension Ternary Complex With Disordered A Opposite
An Oxog In Anti Conformation
pdb|3GIJ|A Chain A, Dpo4 Extension Ternary Complex With Oxog(Syn)-A(Anti) And
Oxog(Anti)- A(Syn) Pairs
pdb|3GIJ|B Chain B, Dpo4 Extension Ternary Complex With Oxog(Syn)-A(Anti) And
Oxog(Anti)- A(Syn) Pairs
pdb|3GIK|A Chain A, Dpo4 Extension Ternary Complex With The Oxog(Anti)-C(Anti)
Pair
pdb|3GIL|A Chain A, Dpo4 Extension Ternary Complex With Oxog(Anti)-T(Anti)
Pair
pdb|3GIL|B Chain B, Dpo4 Extension Ternary Complex With Oxog(Anti)-T(Anti)
Pair
pdb|3GIM|A Chain A, Dpo4 Extension Ternary Complex With Oxog(Anti)-G(Syn) Pair
pdb|3KHG|A Chain A, Dpo4 Extension Ternary Complex With Misinserted A Opposite
The 2- Aminofluorene-Guanine [af]g Lesion
pdb|3KHG|B Chain B, Dpo4 Extension Ternary Complex With Misinserted A Opposite
The 2- Aminofluorene-Guanine [af]g Lesion
pdb|3KHH|A Chain A, Dpo4 Extension Ternary Complex With A C Base Opposite The
2- Aminofluorene-Guanine [af]g Lesion
pdb|3KHH|B Chain B, Dpo4 Extension Ternary Complex With A C Base Opposite The
2- Aminofluorene-Guanine [af]g Lesion
pdb|3KHL|A Chain A, Dpo4 Post-Extension Ternary Complex With Misinserted A
Opposite The 2- Aminofluorene-Guanine [af]g Lesion
pdb|3KHL|B Chain B, Dpo4 Post-Extension Ternary Complex With Misinserted A
Opposite The 2- Aminofluorene-Guanine [af]g Lesion
pdb|3KHR|A Chain A, Dpo4 Post-Extension Ternary Complex With The Correct C
Opposite The 2- Aminofluorene-Guanine [af]g Lesion
pdb|3KHR|B Chain B, Dpo4 Post-Extension Ternary Complex With The Correct C
Opposite The 2- Aminofluorene-Guanine [af]g Lesion
pdb|3RAQ|A Chain A, Dpo4 Extension Ternary Complex With 3'-Terminal Primer C
Base Opposite The 1-Methylguanine (Mg1) Lesion
pdb|3RAQ|B Chain B, Dpo4 Extension Ternary Complex With 3'-Terminal Primer C
Base Opposite The 1-Methylguanine (Mg1) Lesion
pdb|3RAX|A Chain A, Dpo4 Extension Ternary Complex With 3'-Terminal Primer T
Base Opposite The 1-Methylguanine (M1g) Lesion
pdb|3RAX|B Chain B, Dpo4 Extension Ternary Complex With 3'-Terminal Primer T
Base Opposite The 1-Methylguanine (M1g) Lesion
pdb|3RB0|A Chain A, Dpo4 Extension Ternary Complex With 3'-Terminal Primer G
Base Opposite The 1-Methylguanine (M1g) Lesion
pdb|3RB0|B Chain B, Dpo4 Extension Ternary Complex With 3'-Terminal Primer G
Base Opposite The 1-Methylguanine (M1g) Lesion
pdb|3RB3|A Chain A, Dpo4 Extension Ternary Complex With 3'-Terminal Primer A
Base Opposite The 1-Methylguanine (M1g) Lesion
pdb|3RB4|A Chain A, Dpo4 Extension Ternary Complex With 3'-Terminal Primer G
Base Opposite The 3-Methylcytosine (M3c) Lesion
pdb|3RB4|B Chain B, Dpo4 Extension Ternary Complex With 3'-Terminal Primer G
Base Opposite The 3-Methylcytosine (M3c) Lesion
pdb|3RB6|A Chain A, Dpo4 Extension Ternary Complex With 3'-Terminal Primer A
Base Opposite The 3-Methylcytosine (M3c) Lesion
pdb|3RB6|B Chain B, Dpo4 Extension Ternary Complex With 3'-Terminal Primer A
Base Opposite The 3-Methylcytosine (M3c) Lesion
pdb|3RBD|A Chain A, Dpo4 Extension Ternary Complex With 3'-Terminal Primer C
Base Opposite The 3-Methylcytosine (M3c) Lesion
pdb|3RBD|B Chain B, Dpo4 Extension Ternary Complex With 3'-Terminal Primer C
Base Opposite The 3-Methylcytosine (M3c) Lesion
pdb|3RBE|A Chain A, Dpo4 Extension Ternary Complex With 3'-Terminal Primer T
Base Opposite The 3-Methylcytosine (M3c) Lesion
pdb|3RBE|B Chain B, Dpo4 Extension Ternary Complex With 3'-Terminal Primer T
Base Opposite The 3-Methylcytosine (M3c) Lesion
Length = 341
Score = 56.6 bits (135), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 61/272 (22%), Positives = 111/272 (40%), Gaps = 64/272 (23%)
Query: 10 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDAA 68
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 63 EAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKV 115
Query: 69 EAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVL 128
+ +++ LGLE K+
Sbjct: 116 R----------------DYREAYNLGLEIKN----------------------------- 130
Query: 129 IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKM 188
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I +
Sbjct: 131 -------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADV 183
Query: 189 KQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLL 248
+G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 184 PGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV- 241
Query: 249 PKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 280
G+ R + + ++ +L + EE
Sbjct: 242 --RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 271
>pdb|2W9B|A Chain A, Binary Complex Of Dpo4 Bound To N2,N2-Dimethyl-
Deoxyguanosine Modified Dna
pdb|2W9C|A Chain A, Ternary Complex Of Dpo4 Bound To N2,N2-Dimethyl-
Deoxyguanosine Modified Dna With Incoming Dttp
Length = 358
Score = 56.6 bits (135), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 61/272 (22%), Positives = 111/272 (40%), Gaps = 64/272 (23%)
Query: 10 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDAA 68
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 69 EAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKV 121
Query: 69 EAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVL 128
+ +++ LGLE K+
Sbjct: 122 R----------------DYREAYNLGLEIKN----------------------------- 136
Query: 129 IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKM 188
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I +
Sbjct: 137 -------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADV 189
Query: 189 KQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLL 248
+G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 190 PGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKARYLISLARDEYNEPIRTRV- 247
Query: 249 PKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 280
G+ R + + ++ +L + EE
Sbjct: 248 --RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 277
>pdb|2UVR|A Chain A, Crystal Structures Of Mutant Dpo4 Dna Polymerases With 8-
Oxog Containing Dna Template-Primer Constructs
pdb|2UVU|A Chain A, Crystal Structures Of Mutant Dpo4 Dna Polymerases With 8-
Oxog Containing Dna Template-Primer Constructs
Length = 358
Score = 56.6 bits (135), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 61/272 (22%), Positives = 111/272 (40%), Gaps = 64/272 (23%)
Query: 10 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDAA 68
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 69 EAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKV 121
Query: 69 EAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVL 128
+ +++ LGLE K+
Sbjct: 122 R----------------DYREAYNLGLEIKN----------------------------- 136
Query: 129 IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKM 188
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I +
Sbjct: 137 -------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADV 189
Query: 189 KQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLL 248
+G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 190 PGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV- 247
Query: 249 PKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 280
G+ R + + ++ +L + EE
Sbjct: 248 --RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 277
>pdb|3QZ7|A Chain A, T-3 Ternary Complex Of Dpo4
pdb|3QZ8|A Chain A, Tt-4 Ternary Complex Of Dpo4
Length = 360
Score = 56.6 bits (135), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 61/272 (22%), Positives = 111/272 (40%), Gaps = 64/272 (23%)
Query: 10 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDAA 68
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 63 EAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKV 115
Query: 69 EAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVL 128
+ +++ LGLE K+
Sbjct: 116 R----------------DYREAYNLGLEIKN----------------------------- 130
Query: 129 IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKM 188
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I +
Sbjct: 131 -------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADV 183
Query: 189 KQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLL 248
+G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 184 PGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV- 241
Query: 249 PKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 280
G+ R + + ++ +L + EE
Sbjct: 242 --RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 271
>pdb|4F4W|A Chain A, Y-family Dna Polymerase Chimera Dbh-dpo4-dpo4 #1
pdb|4F4W|B Chain B, Y-family Dna Polymerase Chimera Dbh-dpo4-dpo4 #1
pdb|4F4X|A Chain A, Y-family Dna Polymerase Chimera Dbh-dpo4-dpo4 #2
Length = 361
Score = 54.7 bits (130), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 36/155 (23%), Positives = 80/155 (51%), Gaps = 4/155 (2%)
Query: 126 GVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPI 185
G+ + +++ ++L++ + T + G+A NK+LAK+ + +KP + + V+ L+ L I
Sbjct: 122 GIELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDI 181
Query: 186 KKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQA 245
++ +G L L NELG+ + D+L + ++L++ G +L +A+ E ++
Sbjct: 182 DEIPGIGSVLARRL-NELGIQKLRDILSKNYNELEKITGKAKALYLLKLAQDEYNEPIRT 240
Query: 246 RLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 280
R+ G+ R + + ++ +L + EE
Sbjct: 241 RV---RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 272
>pdb|4F4Y|A Chain A, Y-family Dna Polymerase Chimera Dbh-dpo4-dbh
pdb|4F4Y|B Chain B, Y-family Dna Polymerase Chimera Dbh-dpo4-dbh
Length = 362
Score = 54.7 bits (130), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 36/155 (23%), Positives = 78/155 (50%), Gaps = 4/155 (2%)
Query: 126 GVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPI 185
G+ + +++ ++L++ + T + G+A NK+LAK+ + +KP + + V+ L+ L I
Sbjct: 122 GIELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDI 181
Query: 186 KKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQA 245
++ +G L L NELG+ + D+L + ++L++ G +L +A+ E ++
Sbjct: 182 DEIPGIGSVLARRL-NELGIQKLRDILSKNYNELEKITGKAKALYLLKLAQDEYNEPIRT 240
Query: 246 RLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 280
R+ G+ P + V + +L + E
Sbjct: 241 RV---RKSIGRYLTLPYNTRDVKVILPYLKKAINE 272
>pdb|1JX4|A Chain A, Crystal Structure Of A Y-Family Dna Polymerase In A
Ternary Complex With Dna Substrates And An Incoming
Nucleotide
Length = 352
Score = 53.5 bits (127), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 37/149 (24%), Positives = 71/149 (47%), Gaps = 4/149 (2%)
Query: 132 ELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQL 191
E++ ++L++ + T + GI+ NK+ AK+A+ KP + VK L+ L I + +
Sbjct: 127 EIKNKILEKEKITVTVGISKNKVFAKIAADXAKPNGIKVIDDEEVKRLIRELDIADVPGI 186
Query: 192 GGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKS 251
G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 187 GNITAEKLK-KLGINKLVDTLSIEFDKLKGXIGEAKAKYLISLARDEYNEPIRTRV---R 242
Query: 252 HGSGKSFPGPRALKTVASVQHWLNQLCEE 280
G+ R + + ++ +L + EE
Sbjct: 243 KSIGRIVTXKRNSRNLEEIKPYLFRAIEE 271
>pdb|1K1Q|A Chain A, Crystal Structure Of A Dinb Family Error Prone Dna
Polymerase From Sulfolobus Solfataricus
pdb|1K1Q|B Chain B, Crystal Structure Of A Dinb Family Error Prone Dna
Polymerase From Sulfolobus Solfataricus
pdb|1K1S|A Chain A, Crystal Structure Of Dinb From Sulfolobus Solfataricus
Length = 354
Score = 52.8 bits (125), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 35/135 (25%), Positives = 73/135 (54%), Gaps = 4/135 (2%)
Query: 126 GVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPI 185
G+ + +++ ++L++ + T + G+A NK+LAK+ + +KP + + V+ L+ L I
Sbjct: 122 GIELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDI 181
Query: 186 KKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQA 245
++ +G L L NELG+ + D+L + ++L++ G +L +A+ E V+
Sbjct: 182 DEIPGIGSVLARRL-NELGIQKLRDILSKNYNELEKITGKAKALYLLKLAQNKYSEPVEN 240
Query: 246 R-LLPKSHGSGKSFP 259
+ +P HG + P
Sbjct: 241 KSKIP--HGRYLTLP 253
>pdb|3BQ0|A Chain A, Pre-insertion Binary Complex Of Dbh Dna Polymerase
pdb|3BQ1|A Chain A, Insertion Ternary Complex Of Dbh Dna Polymerase
pdb|3BQ2|A Chain A, Post-Insertion Binary Complex Of Dbh Dna Polymerase
pdb|4HYK|A Chain A, Dbh Ternary Complex (substrates Partially Disordered)
Length = 354
Score = 52.8 bits (125), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 35/135 (25%), Positives = 73/135 (54%), Gaps = 4/135 (2%)
Query: 126 GVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPI 185
G+ + +++ ++L++ + T + G+A NK+LAK+ + +KP + + V+ L+ L I
Sbjct: 122 GIELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDI 181
Query: 186 KKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQA 245
++ +G L L NELG+ + D+L + ++L++ G +L +A+ E V+
Sbjct: 182 DEIPGIGSVLARRL-NELGIQKLRDILSKNYNELEKITGKAKALYLLKLAQNKYSEPVEN 240
Query: 246 R-LLPKSHGSGKSFP 259
+ +P HG + P
Sbjct: 241 KSKIP--HGRYLTLP 253
>pdb|4F50|A Chain A, Y-family Dna Polymerase Chimera Dbh-dbh-dpo4
Length = 361
Score = 52.4 bits (124), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 66/119 (55%), Gaps = 1/119 (0%)
Query: 126 GVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPI 185
G+ + +++ ++L++ + T + G+A NK+LAK+ + +KP + + V+ L+ L I
Sbjct: 122 GIELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDI 181
Query: 186 KKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQ 244
++ +G L L NELG+ + D+L + ++L++ G +L +A+ E V+
Sbjct: 182 DEIPGIGSVLARRL-NELGIQKLRDILSKNYNELEKITGKAKALYLLKLAQNKYSEPVE 239
>pdb|1IM4|A Chain A, Crystal Structure Of A Dinb Homolog (Dbh) Lesion Bypass
Dna Polymerase Catalytic Fragment From Sulfolobus
Solfataricus
Length = 221
Score = 47.0 bits (110), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 57/96 (59%), Gaps = 1/96 (1%)
Query: 126 GVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPI 185
G+ + +++ ++L++ + T + G+A NK+LAK+ + +KP + + V+ L+ L I
Sbjct: 127 GIELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDI 186
Query: 186 KKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQE 221
++ +G L L NELG+ + D+L + ++L++
Sbjct: 187 DEIPGIGSVLARRL-NELGIQKLRDILSKNYNELEK 221
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 31/56 (55%), Gaps = 5/56 (8%)
Query: 158 LASGMNKPAQQTTV----PFSS-VKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTV 208
LA+G+N PA+ + F+ + G D +PI + KQ+ G+ G +++G + V
Sbjct: 348 LAAGVNLPARTVIIGDIYRFNKKIAGYYDEIPIMEYKQMSGRAGRPGFDQIGESIV 403
>pdb|3KFU|E Chain E, Crystal Structure Of The Transamidosome
pdb|3KFU|H Chain H, Crystal Structure Of The Transamidosome
Length = 471
Score = 30.0 bits (66), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 33/73 (45%), Gaps = 5/73 (6%)
Query: 346 FLGSFGVKTQGSHYSGWRITALSVSASKIVPV---LSGTCSIMKYFNGPDKFGSTSEQLP 402
F G +G+K S + + A + S +I P+ + +M GPD +TS LP
Sbjct: 172 FCGVYGLKPTYGRVSRFGLIAYASSLDQIGPMARSVRDLALLMDAAAGPDPLDATSLDLP 231
Query: 403 DNFIDA--APLSP 413
F +A PL P
Sbjct: 232 PRFQEALEGPLPP 244
>pdb|2FFK|A Chain A, Solution Structure Of The Complex Between Poxvirus-Encoded
Cc Chemokine Inhibitor Vcci And Human Mip-1beta,
Minimized Average Structure
pdb|2FIN|A Chain A, Solution Structure Of The Complex Between Poxvirus-Encoded
Cc Chemokine Inhibitor Vcci And Human Mip-1beta,
Ensemble Structure
Length = 242
Score = 30.0 bits (66), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 35/77 (45%), Gaps = 5/77 (6%)
Query: 219 LQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLC 278
L+ ++GF + +I+ G V ARL S G GK P + +A ++ C
Sbjct: 88 LRMNFGFTKCPQIKSISESADGNTVNARLSSVSPGQGKDSPAITHEEALAMIKD-----C 142
Query: 279 EELSERLCSDLEQNKRI 295
E + CS+ E++ I
Sbjct: 143 EVSIDIRCSEEEKDSDI 159
>pdb|2X1I|A Chain A, Glycoside Hydrolase Family 77 4-Alpha-Glucanotransferase
From Thermus Brockianus
Length = 500
Score = 29.6 bits (65), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 28/63 (44%)
Query: 194 KLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHG 253
+LG + + L V V D+L + G +G W W + G EE RLL +
Sbjct: 437 RLGMASRARLAVYPVQDVLALGSEARMNYPGRPSGNWAWRLRPGEIKEEHGERLLSLAEA 496
Query: 254 SGK 256
+G+
Sbjct: 497 TGR 499
>pdb|3AI4|A Chain A, Crystal Structure Of Yeast Enhanced Green Fluorescent
Protein - Mouse Polymerase Iota Ubiquitin Binding Motif
Fusion Protein
Length = 283
Score = 29.3 bits (64), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 22/34 (64%), Gaps = 4/34 (11%)
Query: 615 EIDPSVIDELPKEIQDEIQA-WLRP-SKRP--HR 644
+IDP V ELP+E+Q E+ A W R + RP HR
Sbjct: 250 DIDPQVFYELPEEVQKELMAEWERAGAARPSAHR 283
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.312 0.129 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,592,742
Number of Sequences: 62578
Number of extensions: 735795
Number of successful extensions: 1811
Number of sequences better than 100.0: 49
Number of HSP's better than 100.0 without gapping: 43
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1700
Number of HSP's gapped (non-prelim): 82
length of query: 661
length of database: 14,973,337
effective HSP length: 105
effective length of query: 556
effective length of database: 8,402,647
effective search space: 4671871732
effective search space used: 4671871732
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.8 bits)